<!DOCTYPE HTML PUBLIC "-//W3C//DTD HTML 4.01//EN" "http://www.w3.org/TR/html4/strict.dtd">
<html>
<head>
<meta http-equiv="Content-Type" content="text/html; charset=iso-8859-1">
<title>GenomeTools manuals</title>
<link rel="stylesheet" type="text/css" href="style.css">
</head>
<body>
<div id="menu">
<ul>
<li><a href="index.html">Overview</a></li>
<li><a href="https://github.com/genometools/genometools/releases">Releases</a></li>
<li><a href="pub/">Archive</a></li>
<li><a href="https://github.com/genometools/genometools">Browse source</a></li>
<li><a href="http://github.com/genometools/genometools/issues/">Issue tracker</a></li>
<li><a href="documentation.html">Documentation</a></li>
  <ul class="submenu">
    <li><a href="tools.html">Tools</a></li>
    <li><a id="current" href="manuals.html">Manuals</a></li>
    <li><a href="libgenometools.html">C API</a></li>
    <li><a href="docs.html"><tt>gtscript</tt> docs</a></li>
    <li><a href="contract.html">Development Contract</a></li>
    <li><a href="contribute.html">Contribute</a></li>
  </ul>
<li><a href="annotationsketch.html"><tt>AnnotationSketch</tt></a></li>
<li><a href="/cgi-bin/gff3validator.cgi">GFF3 validator</a></li>
<li><a href="license.html">License</a></li>
</ul>
</div>
<div id="main">
<h1>Manuals</h1>
<p>
A general description of <i>GenomeTools</i> design guidelines and development
best practices can be found in the following document:</p>

<ul>
  <li><a href="documents/devguide.pdf"><i>GenomeTools</i> developers guide (PDF)</a></li>
</ul>

<p>
We also provide user manuals for some specific tools in the <i>GenomeTools</i>:
</p>

<ul>
  <li><a href="documents/annotationsketch.pdf"><i>AnnotationSketch</i> API documentation and manual (PDF)</a></li>
  <li><a href="documents/genomediff.pdf"><i>Genomediff</i> user's manual (PDF)</a></li>
  <li><a href="documents/ltrdigest.pdf"><i>LTRdigest</i> user's manual (PDF)</a></li>
  <li><a href="documents/ltrharvest.pdf"><i>LTRharvest</i> user's manual (PDF)</a></li>
  <li><a href="documents/mgth.pdf"><i>MetaGenomeThreader</i> user's manual (PDF)</a></li>
  <li><a href="documents/readjoiner.pdf"><i>Readjoiner</i> user's manual (PDF)</a></li>
  <li><a href="documents/repfind.pdf"><i>Repfind</i> user's manual (PDF)</a></li>
  <li><a href="documents/tagerator.pdf"><i>Tagerator</i> user's manual (PDF)</a></li>
  <li><a href="documents/tallymer.pdf"><i>Tallymer</i> user's manual (PDF)</a></li>
  <li><a href="documents/uniquesub.pdf"><i>Uniquesub</i> user's manual (PDF)</a></li>
</ul>




<div id="footer">
Copyright &copy; 2007-2011 The <i>GenomeTools</i> authors.
Last update: 2011-02-11
</div>
</div>
</body>
</html>
